PXD039180

PXD039180 is an original dataset announced via ProteomeXchange.

Title	Identification of TFG- and autophagy-regulated proteins and glycerophospholipids in B cells shows a role for TFG in metabolism
Description	Autophagy supervises proteostasis and survival of plasma cells. TFG (Trk-fused gene) promotes autophagosome-lysosome flux in murine CH12 B cells, as well as their survival. Moreover, TFG is abundant in plasma cells. Hence, quantitative proteomics of CH12tfgKO and WT B cells in combination with lysosomal inhibition via NH4Cl should identify proteins that are prone to lysosomal degradation and contribute to autophagy, plasma cell biology and B cell survival. While lysosome inhibition via NH4Cl treatment unexpectedly reduced a number of proteins, it increased a large cluster of translational and ribosomal proteins, independent of TFG. The prosurvival protein BCL10 was decreased in CH12tfgKO B cells while the immunoglobulin JCHAIN was increased. Gene ontology analysis revealed that proteins 39 regulated by TFG alone, or in concert with lysosomes, localize to mitochondria and membrane 40 bounded organelles. Likewise, TFG regulated the abundance of metabolic enzymes, such as the glycolytic enzyme ALDOC and the short chain fatty acid activating enzyme ACOT9. To test for a function of TFG in lipid metabolism we performed shotgun lipidomics of glycerophospholipids. Total phosphatidylglycerol was more abundant in CH12tfgKO B cells. In contrast, several glycerophospholipid species, such as 36:2 phosphatidylethanolamine and 36:2 phosphatidylinositol, showed a dysequilibrium. Addition of phosphatidylglycerol elevated Cardiolipin in B cells. Hence, we propose a role for TFG in the regulation of proteins involved in survival and plasma cell biology, as well as in lipid homeostasis, mitochondrial functions and metabolism.
HostingRepository	PRIDE
AnnounceDate	2024-02-27
AnnouncementXML	Submission_2024-02-27_06:24:05.835.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Friedel Drepper
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2023-01-02 19:11:27	ID requested
⏵ 1	2024-02-27 06:24:06	announced

Dataset with its publication pending

submitter keyword: autophagy

autophagy flux

lysosome

B cell

endoplasmic reticulum stress

ribosome

immunoglobulin

plasma cell

JCHAIN

TRK-fused gene

phosphatidylglycerol

Bettina Warscheid
contact affiliation	Biologie II Albert-Ludwigs-Universität Freiburg Schänzlestr. 1 79104 Freiburg Germany
contact email	bettina.warscheid@biologie.uni-freiburg.de
lab head
Friedel Drepper
contact affiliation	AG Warscheid Biologie II Albert-Ludwigs-Universität Freiburg Schänzlestr. 1 79104 Freiburg Germany
contact email	friedel.drepper@biologie.uni-freiburg.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD039180
     1. Label: PRIDE project
     2. Name: Identification of TFG- and autophagy-regulated proteins and glycerophospholipids in B cells shows a role for TFG in metabolism